- Transcript BART1_0-u47383.006
- Transcript IDBART1_0-u47383.006
- Gene IDBART1_0-u47383
Barley RTD
Exon Structure of BART1_0-u47383.006
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr6H | 1 | 557776138 | 557775757 | - |
| chr6H | 2 | 557776874 | 557776813 | - |
| chr6H | 3 | 557777077 | 557777014 | - |
| chr6H | 4 | 557777387 | 557777334 | - |
| chr6H | 5 | 557777826 | 557777680 | - |
| chr6H | 6 | 557778002 | 557777898 | - |
| chr6H | 7 | 557778218 | 557778078 | - |
| chr6H | 8 | 557778541 | 557778435 | - |
| chr6H | 9 | 557781982 | 557781883 | - |
| chr6H | 10 | 557782102 | 557782073 | - |
| chr6H | 11 | 557782889 | 557782773 | - |
| chr6H | 12 | 557783122 | 557782999 | - |
| chr6H | 13 | 557783402 | 557783356 | - |
| chr6H | 14 | 557783611 | 557783483 | - |
| chr6H | 15 | 557783901 | 557783826 | - |
| chr6H | 16 | 557784345 | 557784254 | - |
| chr6H | 17 | 557784651 | 557784467 | - |
grey: non-coding, green: Barley Morex IBSC 2017 Transcript CDS, red: Barley RTD exons
Salmon TPM Values: sixteensamplesmorex
These TPM values were generated by using the RNA-seq data from a 16-tissue experiment in Morex (published here) were calculated using Salmon (version Salmon-0.8.2) using BaRTv1.0-QUASI as the reference transcript dataset. Click here for more information about the RNA-seq experiment and materials
| Sample | Treatment | Rep 1 | Rep 2 | Rep 3 |
|---|---|---|---|---|
| morex | EMB | 2.75477 | 3.03592 | 1.47365 |
| morex | ETI | 6.33184 | 3.52382 | 0 |
| morex | LEA | 6.26139 | 2.91542 | 1.91044 |
| morex | EPI | 0 | 2.15126 | 0.461266 |
| morex | ROO | 2.12812 | 1.62235 | 0.175171 |
| morex | ROO2 | 0.327695 | 0.56474 | 0.000160846 |
| morex | NOD | 11.26 | 7.48878 | 10.3709 |
| morex | RAC | 5.45707 | 4.7143 | 4.98766 |
| morex | INF1 | 6.71613 | 8.53093 | 5.76078 |
| morex | INF2 | 0 | 5.59096 | 1.54259 |
| morex | CAR5 | 5.03889 | 4.82224 | 7.37729 |
| morex | CAR15 | 0 | 0.576798 | 0.0844557 |
| morex | LEM | 0.0000000440451 | 0.990382 | 2.67254 |
| morex | LOD | 5.92992 | 4.74342 | 2.01602 |
| morex | PAL | 1.72263 | 1.48888 | 2.61635 |
| morex | SEN | 1.30544 | 0.488216 | 0.730157 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os09g34130.1 | +3 | 0.0 | 884 | 418/510 (82%) | protein|GRAM domain containing protein, expressed |
| TAIR PP10 | AT3G59660 @ ARAPORT AT3G59660.1 @ TAIR |
+3 | 0.0 | 689 | 322/490 (66%) | Symbols: | C2 domain-containing protein / GRAM domain-containing protein | chr3:22034426-22038484 REVERSE LENGTH=594 |
| BRACH PP3 | Bradi4g35301.1.p | +3 | 0.0 | 907 | 439/521 (84%) | pacid=32787900 transcript=Bradi4g35301.1 locus=Bradi4g35301 ID=Bradi4g35301.1.v3.1 annot-version=v3.1 |
Barley PseudoMolecules GBrowse
Click here to see more tracks within GBrowse -->
grey: non-coding, green: Barley Morex IBSC 2017 Transcript CDS, red: Barley RTD exons
CDS Sequence (1962 bp)
>BART1_0-u47383.006 1962 150831_barley_pseudomolecules GGTAAGCAAAGCAACGGCTGCTGCTGCCGGTCCGCCAGTGTGCAAATTTGGGCGCGGCGA CGAGCGGCCGCCTGTTCTAACGTCGCGACCGTTTTTGTTTTGGCCTTCGTCTGCTCTGCT CCGCTCTGCGCGCCGGGATCGCCGCTCAGTGTCACGAGGGAGCGCCGCCGGCGTATGCTG TCAAGCTGCTGGCCGCCAAGGATTTGATCGCGGCCAACTTGAACGGCACCTCCGACCCGT ACGCACTCATCACCTGCGGCCAAGATAAGCGTTTCAGCTCCATGGTTCCTGGCTCAAGAA ACCCAATGTGGGGAGAGGAATTCAATTTTGTTGTTGACTGTCTTCCTGCAAAGATAAAGG TGGAACTATATGACTGGGACCTAGTATGGAAAAGCACAACACTTGGTTCTGTTACAGTTC CAGTTGAGTCTGAGAAGCAGAGTGGACCAGTTTGGTATACACTTGACAGCTCATCAGGGC GGGTTTGTCTCCATATCAAGGCAATCAGGGTTAATGAGAGTTCCTCCAGGGCTCTAAACA ACTCTGCCGAGGCTGATGCTCGTAAAAGGATGTCCTTAGACAAAGAAGGCCCTATTGTCG TTCACCAAAAGCCAGGTCATTTACAGACAATTTTTGGGCTACCTCCAGATGAGGTTGTTG AACACAGTTATTCATGTGCACTTGAGAGGTCATTTCTGTATCACGGCCGCATGTATGTGT CTTTATGGCACATTTGCTTCTATTCGAACATCTTCTCTAAGCAGATTAAGGTTGAGCTCC CTTTGAGAGATATTGATGAGATAACAAAAAGCCAACTTGCAGTTATTAATCCTGCAATTA CGATATTTCTTCGAACGGGAGCTGGAGGACATGGAGTTCCTTCCTTAGGATGCCCTGATG GAAGAGTTAGATATATATTTGCATCGTTTTGGAACAGAAACCACACAATTAGAGCACTGG AACAAGCTGTGAAGAACTTCCATACCATGATAGAGGCTGAGAAACAGGAACGTGCTCGAT CTGCATTACGTGCACTCAGTGGCTCAAGAAAAAATAGCATGGAGATAGATGTTCCAGAAG ATTGTGCTGATTTAATAGGTCTATTACAACCTTTTGTCAAAGAAGAAGTTCTAGTCTCTG TATTTGATGGAACATTTCCGTGTACTGCAGACCAGTTTTTCAATAATCTTATAAGTGATG ACTCAACTTACACAACAGAATATCGAACAGCTCGTCAGGATAAAGATATCAAACTGGGCC AGTGGCACCTTGCAGACGAGTATGATGGTCAGGTGAGAGAACTTAACTGTAAATCCATGT GCCACAGTCCGATGTGCCCTCCATATTCAGCAATTACAGAGTGGCAGCATACGGTTCTTT CAGCTAACAAAACCGATCTGGTATTCGAGACTGTACAACAAGTACATGATGTTCCCTTTG GTTCCTATTTTGAGATACACTGTAGATGGTCTGTGAAAACCATCGATTCTAGTTCGTGCA GTGTTGACATTAGTGCTGGTGCACATTTCAAGAAATGGTGCATAATGCAGTCTAAGATAA AGAGCGGTGCTGTGGACGAGTTAAAGAAGGAAACTAGAGAAATGTTAGGGTTTGCGGAGT CGTATATGCTAAAAGTTAGCTTCCCTACCCAAGAAGACAACACGGAGCCAGACGCAGATG ACAAACCTGGTGATCAGTAACTCATGACAGCCTATTTGAGCATGCTCTCTTCTAATGGCA GCCACGGTCCCGTGATGGTGGTTTATGATGATACCCAGTGGACCTGTAACTGTAACTAGT CCAAATTTGATATGATTAGCTGCCTTAAAGAAGAAAAATGTTTAGGAAGTCCTATATTGT GTAAACTTTTGGCTTACGTATATCTCTTTTTCTTTAAAAGAGAAGGATAACCCTGGCCTC TGTATCATTGCATGCACACAACCATATTTATTAAACGACGAG
Protein Sequence (472 aa)
>BART1_0-u47383.006 472 150831_barley_pseudomolecules MVPGSRNPMWGEEFNFVVDCLPAKIKVELYDWDLVWKSTTLGSVTVPVESEKQSGPVWYT LDSSSGRVCLHIKAIRVNESSSRALNNSAEADARKRMSLDKEGPIVVHQKPGHLQTIFGL PPDEVVEHSYSCALERSFLYHGRMYVSLWHICFYSNIFSKQIKVELPLRDIDEITKSQLA VINPAITIFLRTGAGGHGVPSLGCPDGRVRYIFASFWNRNHTIRALEQAVKNFHTMIEAE KQERARSALRALSGSRKNSMEIDVPEDCADLIGLLQPFVKEEVLVSVFDGTFPCTADQFF NNLISDDSTYTTEYRTARQDKDIKLGQWHLADEYDGQVRELNCKSMCHSPMCPPYSAITE WQHTVLSANKTDLVFETVQQVHDVPFGSYFEIHCRWSVKTIDSSSCSVDISAGAHFKKWC IMQSKIKSGAVDELKKETREMLGFAESYMLKVSFPTQEDNTEPDADDKPGDQ